AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1422810


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1422810 MtrunA17_Chr3g0134971 96.203 158 5 1 1 157 1 158 2.19e-107 303
Msa1422810 MtrunA17_Chr1g0152341 60.625 160 54 6 6 157 4 162 4.37e-49 155
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1422810 AT1G10140.1 42.353 170 75 6 7 157 2 167 3.77e-23 89.7
Msa1422810 AT1G58420.1 37.931 174 76 6 8 153 6 175 7.92e-21 84.3

Find 40 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAGCATAGCTTCTACTTCT+TGG 0.254156 tig0025489:+37287 None:intergenic
CATACCAACACTAACGGATT+TGG 0.266128 tig0025489:+37382 None:intergenic
TTTGGGAAACCGAATTGATA+TGG 0.303968 tig0025489:-37459 Msa1422810:CDS
AAACCGAATTGATATGGATT+TGG 0.312780 tig0025489:-37453 Msa1422810:CDS
GCAGCTTCAGCTAGGACTTT+GGG 0.347424 tig0025489:-37476 Msa1422810:CDS
GGAAAAGCCTAGTGATGATA+TGG 0.358613 tig0025489:-37345 Msa1422810:CDS
AGCAGCTTCAGCTAGGACTT+TGG 0.364411 tig0025489:-37477 Msa1422810:CDS
GGATAAGAATTTGCCACAAC+AGG 0.377510 tig0025489:+37308 None:intergenic
ATACCAACACTAACGGATTT+GGG 0.389033 tig0025489:+37383 None:intergenic
CAAATCCGTTAGTGTTGGTA+TGG 0.422959 tig0025489:-37381 Msa1422810:CDS
GGGTAACCCGTTTGAAGAAA+CGG 0.435006 tig0025489:+37403 None:intergenic
CAAAACCCGTTTCTTCAAAC+GGG 0.435681 tig0025489:-37409 Msa1422810:CDS
GAACCAAATCCATATCAATT+CGG 0.436672 tig0025489:+37450 None:intergenic
GGTAACCCGTTTGAAGAAAC+GGG 0.437522 tig0025489:+37404 None:intergenic
ACAAAACCCGTTTCTTCAAA+CGG 0.444703 tig0025489:-37410 Msa1422810:CDS
ACCTTGGAGATGAGGAAAAG+TGG 0.460082 tig0025489:-37722 None:intergenic
ATGAATTACAGCAATCCTAC+TGG 0.466774 tig0025489:-37590 Msa1422810:CDS
ACAACACCAATAAGAGTGTT+GGG 0.479331 tig0025489:-37662 Msa1422810:CDS
AACAACACCAATAAGAGTGT+TGG 0.503361 tig0025489:-37663 Msa1422810:CDS
CTCATTATCACCACCACCAC+CGG 0.515759 tig0025489:+37520 None:intergenic
CCGTTAGTGTTGGTATGGGT+CGG 0.519449 tig0025489:-37376 Msa1422810:CDS
ACTTCTCGATCCGGTGGTGG+TGG 0.522423 tig0025489:-37530 Msa1422810:CDS
AGCGCAGTAACTTCTCGATC+CGG 0.538267 tig0025489:-37539 Msa1422810:CDS
AGAAGTAGAAGCTATGCTGT+TGG 0.550220 tig0025489:-37284 Msa1422810:CDS
GTAACTTCTCGATCCGGTGG+TGG 0.556180 tig0025489:-37533 Msa1422810:CDS
TAATGAGAGCAGCTTCAGCT+AGG 0.560584 tig0025489:-37484 Msa1422810:CDS
CCTTCACCCATATCATCACT+AGG 0.561979 tig0025489:+37338 None:intergenic
GTTACTGCGCTGTAACTTCG+CGG 0.566026 tig0025489:+37551 None:intergenic
CGGTGGTGGTGGTGATAATG+AGG 0.566967 tig0025489:-37519 Msa1422810:CDS
CCTTGGAGATGAGGAAAAGT+GGG 0.569313 tig0025489:-37721 None:intergenic
TGAAGGTGATGTTCCTGTTG+TGG 0.576444 tig0025489:-37321 Msa1422810:CDS
TTACCCAAATCCGTTAGTGT+TGG 0.593589 tig0025489:-37386 Msa1422810:CDS
CCGACCCATACCAACACTAA+CGG 0.605120 tig0025489:+37376 None:intergenic
AAATCCGTTAGTGTTGGTAT+GGG 0.605156 tig0025489:-37380 Msa1422810:CDS
AAATTCTCGAATCTTCCAGT+AGG 0.622390 tig0025489:+37575 None:intergenic
GAAAAGCCTAGTGATGATAT+GGG 0.622804 tig0025489:-37344 Msa1422810:CDS
GCAGTAACTTCTCGATCCGG+TGG 0.647445 tig0025489:-37536 Msa1422810:CDS
TGGTATGGGTCGGATTGATG+AGG 0.659406 tig0025489:-37366 Msa1422810:CDS
CCTAGTGATGATATGGGTGA+AGG 0.664408 tig0025489:-37338 Msa1422810:CDS
GTAAGAAGCATAACAAAGTG+CGG 0.704624 tig0025489:-37620 Msa1422810:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAACCGAATTGATATGGATT+TGG - tig0025489:37522-37541 Msa1422810:CDS 30.0%
GAACCAAATCCATATCAATT+CGG + tig0025489:37528-37547 None:intergenic 30.0%
! AACAACACCAATAAGAGTGT+TGG - tig0025489:37312-37331 Msa1422810:CDS 35.0%
!! ACAACACCAATAAGAGTGTT+GGG - tig0025489:37313-37332 Msa1422810:CDS 35.0%
! GTAAGAAGCATAACAAAGTG+CGG - tig0025489:37355-37374 Msa1422810:CDS 35.0%
ATGAATTACAGCAATCCTAC+TGG - tig0025489:37385-37404 Msa1422810:CDS 35.0%
AAATTCTCGAATCTTCCAGT+AGG + tig0025489:37403-37422 None:intergenic 35.0%
TTTGGGAAACCGAATTGATA+TGG - tig0025489:37516-37535 Msa1422810:CDS 35.0%
ACAAAACCCGTTTCTTCAAA+CGG - tig0025489:37565-37584 Msa1422810:CDS 35.0%
!! ATACCAACACTAACGGATTT+GGG + tig0025489:37595-37614 None:intergenic 35.0%
!! AAATCCGTTAGTGTTGGTAT+GGG - tig0025489:37595-37614 Msa1422810:CDS 35.0%
GAAAAGCCTAGTGATGATAT+GGG - tig0025489:37631-37650 Msa1422810:CDS 35.0%
! GCTTTTCCCAACACTCTTAT+TGG + tig0025489:37322-37341 None:intergenic 40.0%
CAAAACCCGTTTCTTCAAAC+GGG - tig0025489:37566-37585 Msa1422810:CDS 40.0%
TTACCCAAATCCGTTAGTGT+TGG - tig0025489:37589-37608 Msa1422810:CDS 40.0%
!! CATACCAACACTAACGGATT+TGG + tig0025489:37596-37615 None:intergenic 40.0%
!! CAAATCCGTTAGTGTTGGTA+TGG - tig0025489:37594-37613 Msa1422810:CDS 40.0%
GGAAAAGCCTAGTGATGATA+TGG - tig0025489:37630-37649 Msa1422810:CDS 40.0%
GGATAAGAATTTGCCACAAC+AGG + tig0025489:37670-37689 None:intergenic 40.0%
ACAGCATAGCTTCTACTTCT+TGG + tig0025489:37691-37710 None:intergenic 40.0%
AGAAGTAGAAGCTATGCTGT+TGG - tig0025489:37691-37710 Msa1422810:CDS 40.0%
TAATGAGAGCAGCTTCAGCT+AGG - tig0025489:37491-37510 Msa1422810:CDS 45.0%
GGTAACCCGTTTGAAGAAAC+GGG + tig0025489:37574-37593 None:intergenic 45.0%
GGGTAACCCGTTTGAAGAAA+CGG + tig0025489:37575-37594 None:intergenic 45.0%
CCTTCACCCATATCATCACT+AGG + tig0025489:37640-37659 None:intergenic 45.0%
CCTAGTGATGATATGGGTGA+AGG - tig0025489:37637-37656 Msa1422810:CDS 45.0%
TGAAGGTGATGTTCCTGTTG+TGG - tig0025489:37654-37673 Msa1422810:CDS 45.0%
GTTACTGCGCTGTAACTTCG+CGG + tig0025489:37427-37446 None:intergenic 50.0%
AGCGCAGTAACTTCTCGATC+CGG - tig0025489:37436-37455 Msa1422810:CDS 50.0%
CTCATTATCACCACCACCAC+CGG + tig0025489:37458-37477 None:intergenic 50.0%
AGCAGCTTCAGCTAGGACTT+TGG - tig0025489:37498-37517 Msa1422810:CDS 50.0%
GCAGCTTCAGCTAGGACTTT+GGG - tig0025489:37499-37518 Msa1422810:CDS 50.0%
CCGACCCATACCAACACTAA+CGG + tig0025489:37602-37621 None:intergenic 50.0%
!! CCGTTAGTGTTGGTATGGGT+CGG - tig0025489:37599-37618 Msa1422810:CDS 50.0%
TGGTATGGGTCGGATTGATG+AGG - tig0025489:37609-37628 Msa1422810:CDS 50.0%
GCAGTAACTTCTCGATCCGG+TGG - tig0025489:37439-37458 Msa1422810:CDS 55.0%
GTAACTTCTCGATCCGGTGG+TGG - tig0025489:37442-37461 Msa1422810:CDS 55.0%
!! CGGTGGTGGTGGTGATAATG+AGG - tig0025489:37456-37475 Msa1422810:CDS 55.0%
! ACTTCTCGATCCGGTGGTGG+TGG - tig0025489:37445-37464 Msa1422810:CDS 60.0%
Chromosome Type Strat End Strand Name
tig0025489 gene 37262 37735 37262 ID=Msa1422810;Name=Msa1422810
tig0025489 mRNA 37262 37735 37262 ID=Msa1422810-mRNA-1;Parent=Msa1422810;Name=Msa1422810-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|157
tig0025489 exon 37262 37735 37262 ID=Msa1422810-mRNA-1:exon:2900;Parent=Msa1422810-mRNA-1
tig0025489 CDS 37262 37735 37262 ID=Msa1422810-mRNA-1:cds;Parent=Msa1422810-mRNA-1
Gene Sequence

>Msa1422810

ATGAGGAAAAGTGGGAAAGAGCAAAAACAAAACAAGATAGTGAGAATAATAACAACACCAATAAGAGTGTTGGGAAAAGCAAAAGACATGTACGTAAGAAGCATAACAAAGTGCGGTAACAACATGAATTACAGCAATCCTACTGGAAGATTCGAGAATTTACCGCGAAGTTACAGCGCAGTAACTTCTCGATCCGGTGGTGGTGGTGATAATGAGGATTTTGCTGAGTTAATGAGAGCAGCTTCAGCTAGGACTTTGGGAAACCGAATTGATATGGATTTGGTTCTCAAACAACAACTAGAAACAAAACCCGTTTCTTCAAACGGGTTACCCAAATCCGTTAGTGTTGGTATGGGTCGGATTGATGAGGAAAAGCCTAGTGATGATATGGGTGAAGGTGATGTTCCTGTTGTGGCAAATTCTTATCCAAGAAGTAGAAGCTATGCTGTTGGAAAGAGAAATGTTGTTTTGTAG

Protein sequence

>Msa1422810

MRKSGKEQKQNKIVRIITTPIRVLGKAKDMYVRSITKCGNNMNYSNPTGRFENLPRSYSAVTSRSGGGGDNEDFAELMRAASARTLGNRIDMDLVLKQQLETKPVSSNGLPKSVSVGMGRIDEEKPSDDMGEGDVPVVANSYPRSRSYAVGKRNVVL*